Influence of the 2H/1H Isotope Composition of the Water Environment on the Probability of Denaturation Bubble Formation in a DNA Molecule

Svidlov, Alexander; Drobotenko, M. I.; Басов, А. А.; Елкина, А. А.; Gerasimenko, E. O.; Малышко, В. В.; Барышев, М. Г.; Джимак, С. С.

doi:10.3103/s1541308x2102014x

Cited by 13 publications

(5 citation statements)

References 17 publications

(16 reference statements)

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“…All of the above-mentioned may be due to the fact that repulsive forces can arise between the strands of the double DNA of the helix, observed, for example, in the field of external electromagnetic waves. Moreover, at certain resonance frequencies, the repulsive forces acting on the strands of the double helix lead to the damage and rupture of the strands of the molecule, or in the case of their longitudinal propagation (action of external forces along the axis of the DNA helix), stretching and unwinding of the double helix may occur [13,22,23], which makes nitrogenous bases much more vulnerable to damage under the influence of various mutagenic factors. Taking into account the fact that the natural frequency of the torque of a gene depends on the length of the DNA helix that forms it and, therefore, this value is specific for different types of cells and their genes, the calculation of the indicators of the natural frequency of DNA oscillations, for example, in the oncogenes or genes of microorganisms, followed by the effect of an external electromagnetic field of the corresponding intensity, can lead to the suppression of the expression of genes of bacteria and oncoproteins, i.e., to a decrease in the multiplication of biopathogens, and a decrease of the growth of tumor cells [24][25][26].…”

Section: Discussionmentioning

confidence: 99%

DNA Dynamics under Periodic Force Effects

Svidlov

Drobotenko

Басов

et al. 2021

IJMS

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The sensitivity of DNA to electromagnetic radiation in different ranges differs depending on various factors. The aim of this study was to examine the molecular dynamics of DNA under the influence of external periodic influences with different frequencies. In the present paper, within the framework of a mechanical model without simplifications, we investigated the effect of various frequencies of external periodic action in the range from 1011 s−1 to 108 s−1 on the dynamics of a DNA molecule. It was shown that under the influence of an external periodic force, a DNA molecule can perform oscillatory movements with a specific frequency characteristic of this molecule, which differs from the frequency of the external influence ω. It was found that the frequency of such specific vibrations of a DNA molecule depends on the sequence of nucleotides. Using the developed mathematical model describing the rotational motion of the nitrogenous bases around the sugar–phosphate chain, it is possible to calculate the frequency and amplitude of the oscillations of an individual DNA area. Such calculations can find application in the field of molecular nanotechnology.

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Section: Discussionmentioning

confidence: 99%

DNA Dynamics under Periodic Force Effects

Svidlov

Drobotenko

Басов

et al. 2021

IJMS

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“…Its concentration in blood plasma is four times more than potassium, six times more than calcium, ten times more than magnesium, and much more than the content of essential macro- and microelements, such as fluorine, iron, iodine, copper, manganese, and cobalt. It is important to note that the deuterium content in the blood plasma of healthy animals is 3–6 ppm higher than the level of deuterium in drinking water [ 3 , 4 , 5 ]. Although the concentration of deuterium in an organism is much lower than that of protium and reflects the D/H ratio in natural nonorganic and organic compounds, a wide variety of morphological and physiological changes have been shown in cells enriched with deuterium, including changes in fundamental processes such as cell division or energy metabolism [ 6 , 7 ].…”

Section: Introductionmentioning

confidence: 99%

Emerging Role of Deuterium/Protium Disbalance in Cell Cycle and Apoptosis

Yaglova

Timokhina

Обернихин

et al. 2023

IJMS

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Deuterium, a stable isotope of hydrogen, is a component of water and organic compounds. It is the second most abundant element in the human body after sodium. Although the concentration of deuterium in an organism is much lower than that of protium, a wide variety of morphological, biochemical, and physiological changes are known to occur in deuterium-treated cells, including changes in fundamental processes such as cell division or energy metabolism. The mode and degree of changes in cells and tissues, both with an increase and a decrease in the concentration of deuterium, depends primarily on the time of exposure, as well as on the concentration. The reviewed data show that plant and animal cells are sensitive to deuterium content. Any shifts in the D/H balance outside or inside cells promote immediate responses. The review summarizes reported data on the proliferation and apoptosis of normal and neoplastic cells in different modes of deuteration and deuterium depletion in vivo and in vitro. The authors propose their own concept of the effects of changes in deuterium content in the body on cell proliferation and death. The altered rate of proliferation and apoptosis indicate a pivotal role of the hydrogen isotope content in living organisms and suggest the presence of a D/H sensor, which is yet to be detected.

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“…Also, based on the angular model, it was found that the presence of deuterium in the chain of nucleotides can cause, depending on the value of the hydrogen bondbreaking energy, both an increase and a decrease in the probability of the occurrence of open states [23]. Moreover, the isotopic composition of the media, causing primarily a single 2 H/ 1 H replacement, affects the size of denaturation bubbles and the probability of their formation [24]. The angular model of DNA [25,26] makes it possible to take into consideration a quite wide range of external influences, such as the viscosity of the medium, the isotopic composition, and external forces [27][28][29][30].…”

Section: Introductionmentioning

confidence: 99%

Influence of a Single Deuterium Substitution for Protium on the Frequency Generation of Different-Size Bubbles in IFNA17

Basov,

Dorohova,

Malyshko

et al. 2023

IJMS

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The influence of a single 2H/1H replacement on the frequency generation of different-size bubbles in the human interferon alpha-17 gene (IFNA17) under various energies was studied by a developed algorithm and mathematical modeling without simplifications or averaging. This new approach showed the efficacy of researching DNA bubbles and open states both when all hydrogen bonds in nitrogenous base pairs are protium and after an 2H-substitution. After a single deuterium substitution under specific energies, it was demonstrated that the non-coding region of IFNA17 had a more significant regulatory role in bubble generation in the whole gene than the promoter had. It was revealed that a single deuterium substitution for protium has an influence on the frequency generation of DNA bubbles, which also depends on their size and is always higher for the smaller bubbles under the largest number of the studied energies. Wherein, compared to the natural condition under the same critical value of energy, the bigger raises of the bubble frequency occurrence (maximums) were found for 11–30 base pair (bp) bubbles (higher by 319%), 2–4 bp bubbles (higher by 300%), and 31 bp and over ones (higher by 220%); whereas the most significant reductions of the indicators (minimums) were observed for 11–30 bp bubbles (lower by 43%) and bubbles size over 30 bp (lower by 82%). In this study, we also analyzed the impact of several circumstances on the AT/GC ratio in the formation of DNA bubbles, both under natural conditions and after a single hydrogen isotope exchange. Moreover, based on the obtained data, substantial positive and inverse correlations were revealed between the AT/GC ratio and some factors (energy values, size of DNA bubbles). So, this modeling and variant of the modified algorithm, adapted for researching DNA bubbles, can be useful to study the regulation of replication and transcription in the genes under different isotopic substitutions in the nucleobases.

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Influence of the 2H/1H Isotope Composition of the Water Environment on the Probability of Denaturation Bubble Formation in a DNA Molecule

Cited by 13 publications

References 17 publications

DNA Dynamics under Periodic Force Effects

DNA Dynamics under Periodic Force Effects

Emerging Role of Deuterium/Protium Disbalance in Cell Cycle and Apoptosis

Influence of a Single Deuterium Substitution for Protium on the Frequency Generation of Different-Size Bubbles in IFNA17

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